Category Archives: Molecular

Postdoc position available on fungal adaptation

Please find below a two-years postdoc position open to any non-French citizen.

Ludo

A two-year postdoctoral position in molecular plant pathology at INRA Angers, France (non-French citizens only)

Applications are invited for a postdoctoral position to study molecular
determinants underlying adaptation of pathogenic fungi to their host plants, in the EcoFun team of the Horticulture and Seed Research Institute (IRHS). Our lab conducts research on the interaction between the scab fungus Venturia inaequalis and its host plants, including domesticated and wild apple trees, and firethorn. Host shifts between these hosts have been reported, making this pathosystem an adequate model to identify genes involved in fungal adaptation to different host plants. The research will employ interdisciplinary approaches, including molecular biology, microscopy and RNA-seq analyses. The first task of this position will be to take ownership of population genomic resequencing data to identify genes present in isolates that are pathogenic on a single host only. The second task will be to determine at which stages of the infection process genes involved in adaptation to different host plants are expressed, using confocal and MEB microscopy of incompatible interactions. This knowledge will be
used in a third task to harvest infected leaves for deep transcriptome sequencing (RNA-seq) and identify genes that are specifically expressed on a given host. The successful candidate is also expected to contribute to the writing of research publications and to help with student supervision.

Job requirements
Candidates should have or expected to obtain a PhD in Biology, Molecular Biology, Functional Genomics, or a closely related subject. Skills in Next Generation Sequencing data analysis are highly desirable. Candidates with a PhD in Bioinformatics are also highly encouraged to apply. Experience in fungi and practical knowledge in molecular biology, microscopy and bioinformatics are advantageous. Candidates must have proficiency in oral and written English. This position is available for non-French citizens only.

Job details
The position is full-time for 24 months and is available to start as early as 1st January 2016. Basic gross salary on appointment will be between €2,200 and €3,100 per month depending on experience. The applicant will have the possibility to obtain an additional mobility allowance from the AgreenSkills and AgreenSkills+ schemes, ranging from €1,300 to €1,700 per month depending on experience (www.agreenskills.eu).

Application
The position is open until filled.
Applications should include a cover letter summarizing your experience and describing your research interests, a curriculum vita, and at least two references.
Applications should be emailed to jerome.collemare@angers.inra.fr.
For further information, please contact Dr. J. Collemare
(email: jerome.collemare@angers.inra.fr; tel.: +33(0) 2 41 22 57 15)

Organization description
Institut de Recherche en Horticulture et Semences (IRHS)
UMR1345 INRA – Université d’Angers – Agro Campus Ouest
Evolutionary Ecology of Fungi (EcoFun)
42 rue Georges Morel
49071 Beaucouzé Cedex
http://www6.angers-nantes.inra.fr/irhs/Recherche/EcoFun

The candidate will be located in IRHS, Angers, which leads research on Rosaceae plants and seeds in France, including research on fungi and bacteria pathogenic on apple, pear and rose. The position will provide access to local excellent technical centres in molecular biology and microscopy (laser-scanning confocal microscope, table electron-scanning microscope). The candidate will have the opportunity to interact with other research teams within the institute; and will
interact with scientists with knowledge in functional genomics, population genetics and genomics, epidemiology and modelling within the EcoFun team.

Life in the Loire Valley
The laboratory is located near Angers, in the Loire Valley. This region is often called the garden of France because of fruits and vegetables production, and green calm landscapes. It is also famous for a gentle way of life, high quality regional food and wines. The banks of the Loire River are very touristic in summer, they offer diverse outdoor activities, including biking and visiting the numerous castles.

2 year postdoc on Drosophila epigenetics

Klaus Reinhardt (Dresden) has a two year postdoc position on genetics and epigenetics of Drosophila. Details here: bioinformatics_Pop_gen_tudaz.

Workshop in Marine Ecology, Evolution, and Genomics

Hello All,

Just a note that there is a workshop in Vigo this fall, organized in part by APS alumni (and friend) Juan Galindo. Although it is focused on marine organisms, the topics tackled should apply well across organisms (particularly the data handling and analyses bits). Victor will be running a hands-on tutorial as part of the workshop. More info can be found here:

http://meeg2014.webs2.uvigo.es/home.html

cheers, Patrik

single cell sequencing

Hello All,

If anyone has any information or experience with DNA sequencing from single cells (e.g., individual sperm), can you please get in touch with me about this?

thanks,

Patrik (p.nosil@sheffield.ac.uk)

Worm/Trojan Alert for Darkroom PC Users

The combined worm and trojan “Worm:Win32/Rimecud.A” was found on the darkroom gel station PC in B75 and has now been cleared. If you have used a USB stick on this PC then that USB stick may well have been infected and the worm will transfer to any computer the USB stick is then inserted into.

Worm:Win32/Rimecud.A spreads by copying itself to removable drives, messenger and peer-to-peer file sharing networks. It also contains backdoor functionality that allows unauthorized access and control of an affected machine.

Assignment tests

Hi everyone,

I have recently had one of my submitted manuscripts back with reviewers comments.  One of their suggestions is that I do some assignment tests on my genotype data to coarsely reconstruct the consequences of translocations in my study population.

I have to admit, I don’t really know where to start with this!  If anyone has any thoughts or suggestions I would be very keen to hear them.

Many thanks,
Raisin

Genemapper patch for Windows 7?

Apparently there exists a patch which enables installation of Genemapper onto a Windows 7 system.

Does anyone have this patch or know where i can get hold of it?

Thanks

Simon (Tablab)

simon.tollington@gmail.com

DNA extraction from Swabs?

Helloooooo, I apologise that I am hijacking the blog from beyond the grave Baltic sea, but I given that the Mol Ecol lab is world renowned for it’s brilliance, innovation, brilliance, etc. I figured someone could help me.

Does anyone have experience of extracting DNA from swabs (buccal swabs, mucus swabs, etc.) cheaply and effectively? If there is a protocol available, or a particular kit which can be recommended, I would be extremely grateful.

You can contact me by email at susjoh@utu.fi, or by leaving a comment here – if I get a good answer then I can post it on the blog.

Missing the lab very much – has anyone beat Andy at Pétanque yet?

Susie.

Mol Ecol Group Meeting Tuesday, 04. May, 11:00h in B52

Our next Group Meeting will be Tuesday, 04. May, at 11:00h in B52.

Karl will tell us about “Hopping on the good flipper and doing the bad thing: an
exposé on the sex lives of hawksbill turtles”.

The second presentation will be given by either me or Ian, and the title of our talk is:

“Fitness consequences of parental provisioning behaviour in house sparrows”.

Hope to see you all,

Julia

Message from Conservation Genetics journal

Dear All,

just an update on how things are progressing with Conservation Genetics in our 10th year.  As you may have seen, we’ve now separated the technical papers into their own new journal: Conservation Genetics Resources.
The main objectives of the new journal are to:

  • Focus on the problems and species which are of concern to conservation biologists and managers
  • Provide a forum for exchanging resources which support research in conservation genetics (including primer notes, but with a broader remit than that)
  • Provide a forum for reporting on the practical incorporation of genetic data into the development of management practice and conservation policy

You can find more detail on the new journal’s website:
http://www.springer.com/life+sci/ecology/journal/12686

This move allows Conservation Genetics to focus more exclusively on full studies and applications, though we’ll retain Short Communication and Review paper formats.  Our impact is steadily improving (IF=2.4 for 2008), and we expect that our change in focus will help increase that further, as was the experience at
Molecular Ecology.  A new feature that we’re introducing this year is the inclusion of special issues, with a target of including one of these every 1-2 years.  The first will be published early in 2010, based around the final meeting of the EU ConGen program with an excellent set of invited authors.
Overall the journal is progressing very well, and we look forward to year 11!
Thanks to all of you for your input and support over the years.

Best, Rus